Gene Expression Nebulas
基于标准化流程分析的转录图谱综合数据库

Gene Expression Nebulas

多物种转录图谱整合数据库

PRJNA308856: Imprinted genes in Capsella rubella

来源: NCBI / GSE76888
提交时间: Jan 14 2016
释放时间: Aug 23 2017
最后更新时间: May 15 2019

概要: Genome-wide identification of imprinted genes in C. rubella.

项目整体设计: Two replicates of Capsella rubella reciprocal hybrid seeds

GEN 数据集:
GEND000634
测序方法:
物种:
组织:
健康状况:
细胞类型:
细胞系:
发育阶段:
方案
生长方案: All seeds were surface sterilized using 5 % Sodium Hypochloride solution under the fume hood. After sterilization seeds were plated on MS media containing 1% sucrose. After stratification for two days in the dark at 4°C seedlings were grown in a growth room under long-day photoperiod (16 hrs light and 8 hrs darkness) at 22°C light and 20°C darkness temperature and a light intensity of 110 µE. All seedlings were transferred to pots and plants were grown in a growth chamber at 60 % humidity and daily cycles of 16 hrs light at 21°C and 8hrs darkness at 18°C. ts were grown in a growth cabinet under long day photoperiods (16 h light and 8 h dark) at 22°C. After 10 days, seedlings were transferred to soil and plants were grown in a growth chamber at 60% humidity and daily cycles of 16 h light at 22°C and 8 h darkness at 18°C.
处理方案: For all crosses, designated female partners were emasculated, and the pistils were hand-pollinated 2 days after emasculation.
提取方案: For DNA-seq, 300 mg young fresh leaves were used as DNA source. For RNA-seq, dissected endosperm of 300-500 seeds per replicate was used. Seeds were harvested at 6 DAP and stored at -20oC in RNAlater® (Sigma-Aldrich, St Louis, USA). RNA extraction was done using RNAqueous® Kit with Plant RNA Isolation Aid (Life Technologies, Carlsbad, USA).
建库方案: The RNA-sequencing libraries were prepared using TruSeq® RNA Sample Preparation Kit v2 (Illumina, San Diego, USA) according to the manufacturer's instructions.DNA-seq and RNA-seq
测序信息
分子类型: polyA(+) RNA
库的片段类型: PAIRED
库的链类型: -
测序平台: ILLUMINA
测序仪型号: Illumina HiSeq 2000
链特异性: Unspecific
样本
基本信息:
样本描述:
生物条件:
实验变量:
方案:
测序信息:
质量评估:
数据来源 GEN样本编号 GEN数据集编号 系列编号 项目编号 样本编号 样本名称 生物样本编号 样本访问号 实验访问号 释放时间 提交时间 最后更新时间 物种 种族 族裔 年龄 年龄单位 性别 来源名称 组织 细胞类型 细胞亚型 细胞系 疾病 疾病状态 发育阶段 突变/变异 表型 Condition Detail 生长方案 处理方案 提取方案 建库方案 分子类型 库的片段类型 链特异性 库的链类型 加标(Spike-In) 测序方法 测序平台 测序仪型号 细胞数 测序片段数 碱基数 平均测序片段长度_1 平均测序片段长度_2 唯一比对率 多重比对率 覆盖度